1BQI

USE OF PAPAIN AS A MODEL FOR THE STRUCTURE-BASED DESIGN OF CATHEPSIN K INHIBITORS. CRYSTAL STRUCTURES OF TWO PAPAIN INHIBITOR COMPLEXES DEMONSTRATE BINDING TO S'-SUBSITES.


Sequence Similarity Clusters for the Entities in PDB 1BQI

Entity #1 | Chains: A
PAPAIN protein, length: 212 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 16 23 2121
95 % 16 23 2419 Flexibility: No
Max RMSD: 0.7, Avg RMSD: 0.4
PDBFlex
90 % 16 23 2482
70 % 16 23 2480
50 % 174 200 146
40 % 209 244 126
30 % 241 284 120

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 2XU3 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
2 5MAJ 1 A Cathepsin L1 9606 3.4.22.15 | Details
3 5MAE 1 A Cathepsin L1 UNP residues 114-333 9606 3.4.22.15 | Details
4 4X6H 1 A Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
5 2XU4 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
6 5MQY 1 A Cathepsin L1 9606 3.4.22.15 | Details
7 2YJC 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
8 2YJ2 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
9 4BS6 1 A, B CATHEPSIN S RESIDUES 116-340 10090 3.4.22.27 | Details
10 4YYU 1 A Ficin isoform C 3494 3.4.22.3 | Details
11 3HHA 1 A, B, C, D Cathepsin L1 Heavy chain and light chain: UNP residues 76-333 9606 3.4.22.15 | Details
12 2YJ8 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
13 4YYR 1 A Ficin B 3494 3.4.22.3 | Details
14 4BS5 1 A CATHEPSIN S RESIDUES 116-340 10090 3.4.22.27 | Details
15 2YJ9 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
16 6ASH 1 A Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
17 4YYS 1 A, B Ficin isoform B 3494 3.4.22.3 | Details
18 3U8E 1 A Papain-like Cysteine Protease 82528
19 5TDI 1 A Cathepsin K 9606 3.4.22.38 | Details
20 5F02 1 A Cathepsin L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
21 2YJB 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
22 4YYW 1 A Ficin isoform D 3494 3.4.22.3 | Details
23 6EZP 1 A Cathepsin L1 9606 3.4.22.15 | Details
24 5A24 1 A DIONAIN-1 MATURE ENZYME 4362
25 2H7J 1 A, B Cathepsin S Cathepsin S 9606 3.4.22.27 | Details
26 2HHN 1 A, B Cathepsin S 9606 3.4.22.27 | Details
27 2CIO 1 A PAPAIN 3649 3.4.22.2 | Details
28 4DMY 1 A, B Cathepsin K unp residues 115-329 9606 3.4.22.38 | Details
29 3P5U 1 A Actinidin 64478 3.4.22.14 | Details
30 2VHS 1 A, B, C, D CATHSILICATEIN EXTENSIVE MUTATIONS, CUSTOM DESIGNED CHIMERA 9606 3.4.22.15 | Details
31 1KHQ 1 A Papain Papain, Residues 134-345 3649 3.4.22.2 | Details
32 3OVX 1 A, B Cathepsin S UNP residues 114-331 9606 3.4.22.27 | Details
33 4YYQ 1 A, B Ficin isoform A 3494 3.4.22.3 | Details
34 2OP3 1 A, B Cathepsin S 9606 3.4.22.27 | Details
35 1PPN 1 A PAPAIN 3649 3.4.22.2 | Details
36 5TUN 1 A Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
37 2XU1 1 A, B, C, D CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
38 1IWD 1 A ERVATAMIN B 52861
39 4MZO 1 A, B, C, D, E, F, G, H Cathepsin S RESIDUES 116-340 10090 3.4.22.27 | Details
40 9PAP 1 A PAPAIN 3649 3.4.22.2 | Details
41 4X6J 1 A Cathepsin K UNP RESIDUES 115-329 9606 3.4.22.38 | Details
42 5JA7 1 A, B Cathepsin K 9606 3.4.22.38 | Details
43 2FRQ 1 A, B cathepsin S 9606 3.4.22.27 | Details
44 3O1G 1 A Cathepsin K 9606 3.4.22.38 | Details
45 4P6G 1 A, B, C, D Cathepsin S 9606 3.4.22.27 | Details
46 3KWZ 1 A Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
47 4DMX 1 A Cathepsin K unp residues 115-329 9606 3.4.22.38 | Details
48 3KSE 1 A, B, C Cathepsin L1 9606 3.4.22.15 | Details
49 1FH0 1 A, B CATHEPSIN V 9606 3.4.22.43 | Details
50 2NQD 2 B Cathepsin L residues 1-220 9606 3.4.22.15 | Details
51 3KX1 1 A Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
52 2ACT 1 A ACTINIDIN PRECURSOR 3625 3.4.22.14 | Details
53 1CVZ 1 A PAPAIN RESIDUES 134-345 3649 3.4.22.2 | Details
54 5QCC 1 A, B Cathepsin S 9606 3.4.22.27 | Details
55 5QBV 1 A, B Cathepsin S 9606 3.4.22.27 | Details
56 2FQ9 1 A, B cathepsin S residues 114-331 9606 3.4.22.27 | Details
57 5QC8 1 A, B Cathepsin S 9606 3.4.22.27 | Details
58 2XU5 1 A CATHEPSIN L1 CATALYTIC DOMAIN, RESIDUES 114-333 9606 3.4.22.15 | Details
59 1PPO 1 A PROTEASE OMEGA 3649 3.4.22.30 | Details
60 3O0U 1 A Cathepsin K UNP Residues 115-329 9606 3.4.22.38 | Details
61 3N3G 1 A, B Cathepsin S 9606 3.4.22.27 | Details
62 1YAL 1 A CHYMOPAPAIN THE ACTIVE SITE CYS 25 AS WELL AS CYS 117 ARE PROTECTED WITH A THIOMETHYL GROUP 3649 3.4.22.6 | Details
63 1AEC 1 A ACTINIDIN 3625 3.4.22.14 | Details
64 1PIP 1 A PAPAIN 3649 3.4.22.2 | Details
65 2FT2 1 A, B cathepsin S 9606 3.4.22.27 | Details
66 4BQV 1 A, B, C, D, E, F, G, H CATHEPSIN S RESIDUES 116-340 10090 3.4.22.27 | Details
67 5JH3 1 A Cathepsin K 9606 3.4.22.38 | Details
68 1MEM 1 A Cathepsin K 9606 3.4.22.38 | Details
69 1TU6 1 A, B Cathepsin K cathepsin K: mature form (residues 115-329) 9606 3.4.22.38 | Details
70 2HH5 1 A, B Cathepsin S 9606 3.4.22.27 | Details
71 4P6E 1 A, B Cathepsin S 9606 3.4.22.27 | Details
72 3C9E 1 A Cathepsin K 9606 3.4.22.38 | Details
73 6MIR 1 A, B Ananain 4615 3.4.22.31 | Details
74 4YVA 1 A Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
75 3E1Z 2 B Papain 3649 3.4.22.2 | Details
76 3IOQ 1 A CMS1MS2 35926
77 5QC7 1 A, B Cathepsin S 9606 3.4.22.27 | Details
78 1MS6 1 A Cathepsin S 9606 3.4.22.27 | Details
79 5QC9 1 A, B Cathepsin S 9606 3.4.22.27 | Details
80 5QCD 1 A Cathepsin S 9606 3.4.22.27 | Details
81 3P5V 1 A Actinidin 64478 3.4.22.14 | Details
82 2R6N 1 A Cathepsin K 9606 3.4.22.38 | Details
83 1NQC 1 A Cathepsin S 9606 3.4.22.27 | Details
84 1PPD 1 A 2-HYDROXYETHYL-THIOPAPAIN 3649 3.4.22.2 | Details
85 2PNS 1 A, B Ervatamin-C, a papain-like plant cysteine protease 52861 3.4.22 | Details
86 4X6I 1 A Cathepsin K UNP RESIDUES 115-329 9606 3.4.22.38 | Details
87 1O0E 1 A, B Ervatamin C 52861 3.4.22 | Details
88 4YYV 1 A Ficin isoform C 3494 3.4.22.3 | Details
89 5QC3 1 A, B Cathepsin S 9606 3.4.22.27 | Details
90 4N8W 1 A Cathepsin K 9606 3.4.22.38 | Details
91 5QC4 1 A, B Cathepsin S 9606 3.4.22.27 | Details
92 2F7D 1 A Cathepsin K 9986 3.4.22.38 | Details
93 3OF9 1 A Cathepsin L1 Cathepsin L 9606 3.4.22.15 | Details
94 3H8B 1 A, B, C, D, E, F Cathepsin L1 Cathepsin L Heavy Chain and Light Chain, UNP residues 114-333 9606 3.4.22.15 | Details
95 3F75 1 A Cathepsin L Protease UNP residues 199-422 5811 3.4.22.15 | Details
96 2F1G 1 A, B Cathepsin S Cathepsin S 9606 3.4.22.27 | Details
97 4BSQ 1 A CATHEPSIN S CATHEPSIN S, RESIDUES 116-340 10090 3.4.22.27 | Details
98 2R9M 1 A, B Cathepsin S 9606 3.4.22.27 | Details
99 1PPP 1 A PAPAIN 3649 3.4.22.2 | Details
100 4AXL 1 A CATHEPSIN L1 CATALYTIC, RESIDUES 114-333 9606 3.4.22.15 | Details
101 5QC6 1 A, B Cathepsin S 9606 3.4.22.27 | Details
102 4YV8 1 A Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
103 3KFQ 1 A, B Cathepsin L2 9606 3.4.22.43 | Details
104 3KW9 1 A Cathepsin K UNP residues 115 to 329 9606 3.4.22.38 | Details
105 2FUD 1 A, B cathepsin S 9606 3.4.22.27 | Details
106 1S4V 1 A, B cysteine endopeptidase 3988
107 1PE6 1 A PAPAIN 3649 3.4.22.2 | Details
108 2R9N 1 A, B Cathepsin S 9606 3.4.22.27 | Details
109 5QCF 1 A Cathepsin S 9606 3.4.22.27 | Details
110 2R9O 1 A, B Cathepsin S 9606 3.4.22.27 | Details
111 1KHP 1 A Papain Papain, Residues 134-345 3649 3.4.22.2 | Details
112 4MZS 1 A, B Cathepsin S RESIDUES 116-340 10090 3.4.22.27 | Details
113 5QCJ 1 A, B, C Cathepsin S 9606 3.4.22.27 | Details
114 5QC0 1 A, B Cathepsin S 9606 3.4.22.27 | Details
115 3IMA 1 A, C Papain Papain domain 3649 3.4.22.2 | Details
116 6MIS 1 A, B Ananain 4615 3.4.22.31 | Details
117 1NPZ 1 A, B Cathepsin S 9606 3.4.22.27 | Details
118 1MEG 1 A CARICAIN 3649 3.4.22.30 | Details
119 2HXZ 1 A, B, C Cathepsin S 9606 3.4.22.27 | Details
120 2FRA 1 A, B cathepsin S residues 114 - 331 9606 3.4.22.27 | Details
121 1U9X 1 A Cathepsin K 9606 3.4.22.38 | Details
122 2BDL 1 A Cathepsin K mature form of cathepsin K (residues 115-329) 9606 3.4.22.38 | Details
123 2ATO 1 A Cathepsin K 9606 3.4.22.38 | Details
124 2G7Y 1 A, B Cathepsin S 9606 3.4.22.27 | Details
125 5QCI 1 A Cathepsin S 9606 3.4.22.27 | Details
126 2BDZ 1 A, B, C, D Mexicain 309130 3.4.22 | Details
127 5QC2 1 A, B Cathepsin S 9606 3.4.22.27 | Details
128 3KWB 1 X, Y Cathepsin K full length 9606 3.4.22.38 | Details
129 6F06 1 A, B Cathepsin L1 9606 3.4.22.15 | Details
130 1VSN 1 A Cathepsin K cathepsin K 9606 3.4.22.38 | Details
131 5QBX 1 A, B Cathepsin S 9606 3.4.22.27 | Details
132 4BPV 1 A, B, C, D, E, K CATHEPSIN S RESIDUES 116-340 10090 3.4.22.27 | Details
133 1U9V 1 A Cathepsin K 9606 3.4.22.38 | Details
134 6H8T 1 A, J Papain Cysteine 25 is covalently bound to a Ruthenium complex. Tyr 61 and 67 are hydroxylated. 3649 3.4.22.2 | Details
135 3P5X 1 A Actinidin 64478 3.4.22.14 | Details
136 1GEC 1 E GLYCYL ENDOPEPTIDASE 3649 3.4.22.25 | Details
137 5QC1 1 A, B Cathepsin S 9606 3.4.22.27 | Details
138 1Q6K 1 A Cathepsin K 9606 3.4.22.38 | Details
139 3P5W 1 A Actinidin 64478 3.4.22.14 | Details
140 3N4C 1 A, B Cathepsin S UNP residues 115 to 331 9606 3.4.22.27 | Details
141 5QBY 1 A, B Cathepsin S 9606 3.4.22.27 | Details
142 3BC3 1 A, B Cathepsin L heavy and light chains UNp residues 114-333 9606 3.4.22.15 | Details
143 3H6S 1 A, B, C, D Cathepsin L2 9606 3.4.22.43 | Details
144 3IEJ 1 A, B Cathepsin S JNJ27120509 9606 3.4.22.27 | Details
145 1U9W 1 A Cathepsin K 9606 3.4.22.38 | Details
146 3H7D 1 A, E Cathepsin K UNP residues 115-329 9606 3.4.22.38 | Details
147 1BP4 1 A PAPAIN ALDEHYDE INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 AS A HEMIMERCAPTAL. BOND OCCURS BETWEEN CYS 25-SG AND ALD 213-C22 NON 3649 3.4.22.2 | Details
148 1CQD 1 A, B, C, D PROTEIN (PROTEASE II) TETRATHIONATE ATTACHED TO CYS-27 94328
149 1GLO 1 A CATHEPSIN S 9606 3.4.22.27 | Details
150 3OF8 1 A Cathepsin L1 residues 113-333 9606 3.4.22.15 | Details
151 5QCB 1 A, B Cathepsin S 9606 3.4.22.27 | Details
152 5QCA 1 A, B Cathepsin S 9606 3.4.22.27 | Details
153 5QCH 1 A, B, C, D Cathepsin S 9606 3.4.22.27 | Details
154 1YT7 1 A Cathepsin K sequence database residues 115-329 9606 3.4.22.38 | Details
155 3IV2 1 A, B Cathepsin L1 Mature protein: UNP residues 114-333 9606 3.4.22.15 | Details
156 3OVZ 1 A Cathepsin K UNP residues 121-329 9606 3.4.22.38 | Details
157 2FYE 1 A cathepsin S preproprotein 9606 3.4.22.27 | Details
158 1AYU 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
159 2AUZ 1 A Cathepsin K mature form of cathepsin K (residues 115-329) 9606 3.4.22.38 | Details
160 1ATK 1 A CATHEPSIN K INHIBITOR E-64 COVALENT LINK BETWEEN INHIBITOR ATOM C2 AND THE SULFUR OF CYS 25 9606 3.4.22.38 | Details
161 5J94 1 A Cathepsin K 9606 3.4.22.38 | Details
162 5QC5 1 A, B Cathepsin S 9606 3.4.22.27 | Details
163 1STF 1 E PAPAIN 3649 3.4.22.2 | Details
164 1AYV 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
165 2AUX 1 A Cathepsin K mature form of cathepsin K (residues 115-329) 9606 3.4.22.38 | Details
166 1YK7 1 A Cathepsin K mature form of cathepsin K (sequence database residues 115-329) 9606 3.4.22.38 | Details
167 1SNK 1 A Cathepsin K 9606 3.4.22.38 | Details
168 1AU3 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
169 2G6D 1 A cathepsin S 9606 3.4.22.27 | Details
170 6EZX 1 A, B Cathepsin L1 9606 3.4.22.15 | Details
171 1BGO 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
172 3K24 1 A, B Cathepsin L1 mC25A: UNP residues 114-333 9606 3.4.22.15 | Details
173 5QBW 1 A Cathepsin S 9606 3.4.22.27 | Details
174 1BQI 1 A PAPAIN METHOXYMETHYLKETONE BOUND NON-COVALENTLY IN S'-SUBSITE 3649 3.4.22.2 | Details
175 3H89 1 A, B, C, D, E, F Cathepsin L1 Cathepsin L Heavy Chain and Light Chain, UNP residues 114-333 9606 3.4.22.15 | Details
176 1AYW 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
177 5QCG 1 A, B Cathepsin S 9606 3.4.22.27 | Details
178 2PRE 1 A, B Ervatamin-C 52861 3.4.22 | Details
179 5QBZ 1 A Cathepsin S 9606 3.4.22.27 | Details
180 3LFY 1 A, C Papain Papain DOMAIN 3649 3.4.22.2 | Details
181 5QBU 1 A, B Cathepsin S 9606 3.4.22.27 | Details
182 1AU4 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
183 1AU0 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
184 4AXM 1 A, B, F, I, L, O CATHEPSIN L1 CATALYTIC, RESIDUES 114-333 9606 3.4.22.15 | Details
185 1YK8 1 A Cathepsin K sequence database residues 115-329 9606 3.4.22.38 | Details
186 5QCE 1 A, B Cathepsin S 9606 3.4.22.27 | Details
187 3H8C 1 A, B Cathepsin L1 Cathepsin L Heavy Chain and Light Chain, UNP residues 114-333 9606 3.4.22.15 | Details
188 2FTD 1 A, B Cathepsin K 9544 3.4.22.38 | Details
189 1NLJ 1 A, B CATHEPSIN K 9606 3.4.22.38 | Details
190 4N79 1 A Cathepsin K 9606 3.4.22.38 | Details
191 1AU2 1 A CATHEPSIN K INHIBITOR COVALENTLY BOUND TO ACTIVE SITE CYS 25 9606 3.4.22.38 | Details
192 5T6U 1 A Cathepsin K 10090 3.4.22.38 | Details
193 3BCN 1 A, B Ervatamin-A 52861 3.4.22 | Details
194 1NL6 1 A, B Cathepsin K 9606 3.4.22.38 | Details
195 1POP 1 A PAPAIN 3649 3.4.22.2 | Details
196 1PAD 1 A PAPAIN 3649 3.4.22.2 | Details
197 2PAD 1 A PAPAIN 3649 3.4.22.2 | Details
198 4PAD 1 A PAPAIN 3649 3.4.22.2 | Details
199 5PAD 1 A PAPAIN 3649 3.4.22.2 | Details
200 6PAD 1 A PAPAIN 3649 3.4.22.2 | Details